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. 2021 Sep 28;13:713084. doi: 10.3389/fnagi.2021.713084

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Copyright © 2021 Lüth, Wasner, Klein, Schaake, Tse, Pereira, Laß, Sinkkonen, Grünewald and Trinh.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Analysis of synthetic DNA for the validation of the data analysis pipeline. (A) Methylation frequency detected by Nanopolish from three samples of synthetic DNA with different proportions of methylated DNA (0, 50 and 100%), only reads that passed Guppy quality threshold were included in the analysis. (B) Methylation frequency detected by Nanopolish from three samples of synthetic DNA with different proportions of methylated DNA (0, 50 and 100%), only reads that failed Guppy quality threshold were included in the analysis. (C) Stacked bar plot of the fraction of reads that passed (blue) or failed (red) the Guppy quality threshold, stratified by the ratio of methylated reads in the sample. (D) Relationship between the coverage and methylation frequency in the sample with 100% methylated reads, only reads that passed Guppy quality threshold were included in the analysis. (E) Relationship between the coverage and methylation frequency in the sample with 100% methylated reads, only reads that failed Guppy quality threshold were included in the analysis. r, Spearman's rank correlation coefficient; p, Spearman's exploratory p-value.